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3 protocols using porin

1

Immunoblotting Analysis of Retinal Proteins

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Primary antibodies against the following proteins were used: PlxnB1, RhoA and β5 Integrin (Santa Cruz Biotechnology, Santa Cruz, CA), Rac 1 (BD Biosciences, San Jose, CA), Sema4D (Millipore, Billerica, MA, and Bio-Techne, Minneapolis, MN), RPE65 (Genetex, Irvine, CA), porin, AKT and phospho-AKT (ser473) (Cell Signaling, Danvers, MA), MerTK and MFG-E8 (Bio-Techne), rhodopsin clone B6-30 [21 (link)], PSD 95 (EMD Millipore), β-actin (Sigma), and ZO-1 (Thermofisher).
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2

Quantitative Western Blot Analysis of Retinal Proteins

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Individual dissected posterior eyecups were lysed in 160 μL of HNTG detergent buffer (50 mM HEPES, pH 7.4, 150 mM NaCl, 10% glycerol, 1.5 mM MgCl2, 1% Triton X-100) freshly supplemented with 1% protease and phosphatase inhibitor cocktails (#P8340, Sigma-Millipore, and #78420, Thermofisher, respectively). Cleared lysates representing equal eyecup tissue fractions were separated on 12% SDS polyacrylamide gels using a standard Tris–glycine buffer system (Novex gels and solutions, Thermofisher). Proteins were transferred to nitrocellulose membranes (#88018, Thermofisher) for immunodetection with primary and appropriate horseradish peroxidase (HRP)-conjugated secondary antibodies. The primary antibodies used were porin (#4866, Cell Signaling, 1:5,000), RhoA (#sc-179, Santa Cruz Biotechnologies, Santa Cruz, CA, USA, 1:200), rhodopsin (clone B6-30, 0.01 μg/mL), and α-tubulin (#9099, Cell Signaling, 1:5,000). The secondary antibodies used were donkey-anti-rabbit IgG-HRP (#16029, Thermofisher, 1:10,000) and donkey-anti-mouse IgG-HRP (#16011, Thermofisher, 1:5,000). Chemiluminescence reaction signals from ECL-plus substrate (#NEL105001EA, Perkin-Elmer, Shelton, CT, USA) were captured with X-ray films (#3018, Denville Scientific, Swedesboro, NJ, USA), which were scanned and quantified by densitometry using Image QuantTM TL 7.0 (GE Healthcare, Chicago, IL, USA).
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3

Western Blot Analysis of Liver Proteins

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Snap frozen liver tissue was homogenized in buffer (20 mM HEPES, pH 7.0; 2 mM EGTA, 1 mM EDTA, 1% Triton X-100, 10% glycerol, 150 mM NaCl, and 20 mM glycerol-2-phosphate) and centrifuged at 20,000×g at 4 °C for 5 min to remove cell debris and the supernatant separated. Protein concentration was measured using the BCA assay and samples were denatured at 95°C followed by separation on 10–12% SDS polyacrylamide gels and transfer to polyvinylidene fluoride (PVDF) membrane, which were then probed with primary antibodies at 1:1000 dilution overnight. Subsequently, the corresponding horseradish peroxidase (HRP) labelled secondary antibody (Cat. # sc2357 or sc2055; Santa Cruz Biotechnology, Dallas, TX) was used and proteins were visualized by enhanced chemiluminescence detection on a LICOR Odyssey Imager (LICOR Biosciences). The primary antibodies used were total JNK (catalogue #9252), phospho-JNK (# 9251), β-actin (#4970), Bax (#27742), AIF (#5318), Smac (15108) and porin (4661) from Cell Signaling Technologies (Danvers, MA).
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